1 /// @file htslib/thread_pool.h 2 /// Thread pool for multi-threading applications. 3 /* 4 Copyright (c) 2013-2017, 2019 Genome Research Ltd. 5 6 Author: James Bonfield <jkb@sanger.ac.uk> 7 8 Permission is hereby granted, free of charge, to any person obtaining a copy 9 of this software and associated documentation files (the "Software"), to deal 10 in the Software without restriction, including without limitation the rights 11 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell 12 copies of the Software, and to permit persons to whom the Software is 13 furnished to do so, subject to the following conditions: 14 15 The above copyright notice and this permission notice shall be included in 16 all copies or substantial portions of the Software. 17 18 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR 19 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, 20 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL 21 THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER 22 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING 23 FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER 24 DEALINGS IN THE SOFTWARE. */ 25 26 /* 27 * This file implements a thread pool for multi-threading applications. It 28 * consists of two distinct interfaces: thread pools and thread process 29 * queues (a queue of both jobs to-do and of the results of completed jobs). 30 * Do not confuse "process" here with a unix PID; rather it is analogous to a 31 * program reading a stream of data blocks, processing them in some manner, 32 * and outputting a stream of new data blocks. 33 * 34 * The pool of threads is given a function pointer and void* data to pass in. 35 * This means the pool can run jobs of multiple types, albeit first come 36 * first served with no job scheduling except to pick tasks for the 37 * processes that have room to store the result. 38 * 39 * Upon completion, the return value from the function pointer is 40 * added to back to the process result queue if required. We may have 41 * multiple "processes" in use for the one pool. 42 * 43 * To see example usage, please look at the #ifdef TEST_MAIN code in 44 * thread_pool.c. 45 */ 46 47 module htslib.thread_pool; 48 49 extern (C): 50 51 /*----------------------------------------------------------------------------- 52 * Opaque data types. 53 * 54 * Actual definitions are in thread_pool_internal.h, but these should only 55 * be used by thread_pool.c itself. 56 */ 57 58 /** 59 * An hts_tpool_process implements a queue of input jobs to process and a 60 * queue of resulting output post-processing. Internally it consists of two 61 * buffered queues, analogous to the pipes in a unix pipeline: 62 * ...input | process | output... 63 * 64 * Both input and output queues have size limits to prevent either queue from 65 * growing too large and serial numbers to ensure sequential consumption of 66 * the output. 67 * 68 * The thread pool may have many heterogeneous tasks, each using its own 69 * process mixed into the same thread pool. 70 */ 71 struct hts_tpool_process; 72 73 /** 74 * The single pool structure itself. 75 * 76 * This knows nothing about the nature of the jobs or where their output is 77 * going, but it maintains a list of process-queues associated with this pool 78 * from which the jobs are taken. 79 */ 80 struct hts_tpool; 81 82 /** 83 * An output, after job has executed. 84 */ 85 struct hts_tpool_result; 86 87 /*----------------------------------------------------------------------------- 88 * Thread pool external functions 89 */ 90 91 /** 92 * Creates a worker pool with n worker threads. 93 * 94 * Returns pool pointer on success; 95 * NULL on failure 96 * 97 * The hts_tpool struct returned by a successful call should be freed 98 * via hts_tpool_destroy() when it is no longer needed. 99 */ 100 hts_tpool* hts_tpool_init(int n); 101 102 /** 103 * Returns the number of requested threads for a pool. 104 */ 105 int hts_tpool_size(hts_tpool* p); 106 107 /// Add an item to the work pool. 108 /** 109 * @param p Thread pool 110 * @param q Process queue 111 * @param func Function run by the thread pool 112 * @param arg Data for use by func() 113 * @return 0 on success 114 * -1 on failure 115 */ 116 // FIXME: should this drop the hts_tpool*p argument? It's just q->p 117 int hts_tpool_dispatch( 118 hts_tpool* p, 119 hts_tpool_process* q, 120 void* function(void* arg) func, 121 void* arg); 122 123 /// Add an item to the work pool, with nonblocking option. 124 /** 125 * @param p Thread pool 126 * @param q Process queue 127 * @param func Function run by the thread pool 128 * @param arg Data for use by func() 129 * @param nonblock Non-blocking flag (see description) 130 * @return 0 on success 131 * -1 on failure 132 * 133 * The @p nonblock parameter can take one of the following values: 134 * 0 => block if input queue is full 135 * +1 => don't block if input queue is full, but do not add task 136 * -1 => add task regardless of whether queue is full (over-size) 137 * 138 * If @p nonblock is +1 and the queue is full, -1 will be returned and 139 * `errno` is set to `EAGAIN`. 140 */ 141 int hts_tpool_dispatch2( 142 hts_tpool* p, 143 hts_tpool_process* q, 144 void* function(void* arg) func, 145 void* arg, 146 int nonblock); 147 148 /// Add an item to the work pool, with nonblocking and cleanup callbacks. 149 /** 150 * @param p Thread pool 151 * @param q Process queue 152 * @param exec_func Function run by the thread pool 153 * @param arg Data for use by func() 154 * @param job_cleanup Callback to clean up when discarding jobs 155 * @param result_cleanup Callback to clean up when discarding result data 156 * @param nonblock Non-blocking flag (see description) 157 * @return 0 on success 158 * -1 on failure 159 * 160 * The @p nonblock parameter can take one of the following values: 161 * 0 => block if input queue is full 162 * +1 => don't block if input queue is full, but do not add task 163 * -1 => add task regardless of whether queue is full (over-size) 164 * 165 * If @p nonblock is +1 and the queue is full, -1 will be returned and 166 * `errno` is set to `EAGAIN`. 167 * 168 * The job_cleanup() and result_cleanup() callbacks are used when discarding 169 * data from a queue, for example when calling hts_tpool_process_reset() 170 * or hts_tpool_process_destroy(). 171 * 172 * If not NULL, job_cleanup() will be called for each pending job with the 173 * value of @p arg that was set for that job. This can be used to free 174 * any data associated with @p arg, and also @p arg itself. 175 * 176 * Similarly, result_cleanup() can be used to free any results left by 177 * jobs that had started before hts_tpool_process_reset() was called. 178 * The argument passed to result_cleanup() is the pointer that would 179 * have been returned by calling hts_tpool_result_data() on the result 180 * when pulled from the queue. 181 * 182 * job_cleanup() and result_cleanup() are only called when discarding jobs. 183 * For jobs that are processed normally, it is the resposibility of 184 * exec_func() and / or consumers of any results to do any cleaning up 185 * necessary. 186 */ 187 int hts_tpool_dispatch3( 188 hts_tpool* p, 189 hts_tpool_process* q, 190 void* function(void* arg) exec_func, 191 void* arg, 192 void function(void* arg) job_cleanup, 193 void function(void* data) result_cleanup, 194 int nonblock); 195 196 /** 197 * Wakes up a single thread stuck in dispatch and make it return with 198 * errno EAGAIN. 199 */ 200 void hts_tpool_wake_dispatch(hts_tpool_process* q); 201 202 /** 203 * Flushes the process-queue, but doesn't exit. This simply drains the queue 204 * and ensures all worker threads have finished their current tasks 205 * associated with this process. 206 * 207 * NOT: This does not mean the worker threads are not executing jobs in 208 * another process-queue. 209 * 210 * Returns 0 on success; 211 * -1 on failure 212 */ 213 int hts_tpool_process_flush(hts_tpool_process* q); 214 215 /** 216 * Resets a process to the initial state. 217 * 218 * This removes any queued up input jobs, disables any notification of 219 * new results/output, flushes what is left and then discards any 220 * queued output. Anything consumer stuck in a wait on results to 221 * appear should stay stuck and will only wake up when new data is 222 * pushed through the queue. 223 * 224 * Returns 0 on success; 225 * -1 on failure 226 */ 227 int hts_tpool_process_reset(hts_tpool_process* q, int free_results); 228 229 /** Returns the process queue size */ 230 int hts_tpool_process_qsize(hts_tpool_process* q); 231 232 /** 233 * Destroys a thread pool. The threads are joined into the main 234 * thread so they will finish their current work load. 235 */ 236 void hts_tpool_destroy(hts_tpool* p); 237 238 /** 239 * Destroys a thread pool without waiting on jobs to complete. 240 * Use hts_tpool_kill(p) to quickly exit after a fatal error. 241 */ 242 void hts_tpool_kill(hts_tpool* p); 243 244 /** 245 * Pulls the next item off the process result queue. The caller should free 246 * it (and any internals as appropriate) after use. This doesn't wait for a 247 * result to be present. 248 * 249 * Results will be returned in strict order. 250 * 251 * Returns hts_tpool_result pointer if a result is ready. 252 * NULL if not. 253 */ 254 hts_tpool_result* hts_tpool_next_result(hts_tpool_process* q); 255 256 /** 257 * Pulls the next item off the process result queue. The caller should free 258 * it (and any internals as appropriate) after use. This will wait for 259 * a result to be present if none are currently available. 260 * 261 * Results will be returned in strict order. 262 * 263 * Returns hts_tpool_result pointer if a result is ready. 264 * NULL on error or during shutdown. 265 */ 266 hts_tpool_result* hts_tpool_next_result_wait(hts_tpool_process* q); 267 268 /** 269 * Frees a result 'r' and if free_data is true also frees 270 * the internal r->data result too. 271 */ 272 void hts_tpool_delete_result(hts_tpool_result* r, int free_data); 273 274 /** 275 * Returns the data portion of a hts_tpool_result, corresponding 276 * to the actual "result" itself. 277 */ 278 void* hts_tpool_result_data(hts_tpool_result* r); 279 280 /** 281 * Initialises a thread process-queue. 282 * 283 * In_only, if true, indicates that the process generates does not need to 284 * hold any output. Otherwise an output queue is used to store the results 285 * of processing each input job. 286 * 287 * Results hts_tpool_process pointer on success; 288 * NULL on failure 289 * 290 * The hts_tpool_process struct returned by a successful call should be freed 291 * via hts_tpool_process_destroy() when it is no longer needed. 292 */ 293 hts_tpool_process* hts_tpool_process_init(hts_tpool* p, int qsize, int in_only); 294 295 /** Deallocates memory for a thread process-queue. 296 * Must be called before the thread pool is destroyed. 297 */ 298 void hts_tpool_process_destroy(hts_tpool_process* q); 299 300 /** 301 * Returns true if there are no items in the process results queue and 302 * also none still pending. 303 */ 304 int hts_tpool_process_empty(hts_tpool_process* q); 305 306 /** 307 * Returns the number of completed jobs in the process results queue. 308 */ 309 int hts_tpool_process_len(hts_tpool_process* q); 310 311 /** 312 * Returns the number of completed jobs in the process results queue plus the 313 * number running and queued up to run. 314 */ 315 int hts_tpool_process_sz(hts_tpool_process* q); 316 317 /** 318 * Shutdown a process. 319 * 320 * This sets the shutdown flag and wakes any threads waiting on process 321 * condition variables. 322 */ 323 void hts_tpool_process_shutdown(hts_tpool_process* q); 324 325 /** 326 * Attach and detach a thread process-queue with / from the thread pool 327 * scheduler. 328 * 329 * We need to do attach after making a thread process, but may also wish 330 * to temporarily detach if we wish to stop running jobs on a specific 331 * process while permitting other process to continue. 332 */ 333 void hts_tpool_process_attach(hts_tpool* p, hts_tpool_process* q); 334 335 void hts_tpool_process_detach(hts_tpool* p, hts_tpool_process* q); 336 337 /** 338 * Increment and decrement the reference count in a process-queue. 339 * If the queue is being driven from two external (non thread-pool) 340 * threads, eg "main" and a "reader", this permits each end to 341 * decrement its use of the process-queue independently. 342 */ 343 void hts_tpool_process_ref_incr(hts_tpool_process* q); 344 345 void hts_tpool_process_ref_decr(hts_tpool_process* q); 346